2OSE - JenaLib

Biol.Unit 1 - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE MIMIVIRUS CYCLOPHILIN

Authors :   E. Z. Eisenmesser, V. Thai, P. Renesto, D. Raoult

Date :   05 Feb 07 (Deposition) - 18 Dec 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.04

Chains :   Asym. Unit : A
Biol. Unit 1: A  (3x)

Keywords :   Mimivirus, Cyclophilin, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. Thai, P. Renesto, C. A. Fowler, D. J. Brown, T. Davis, W. Gu, D. D. Pollock, D. Kern, D. Raoult, E. Z. Eisenmesser
Structural, Biochemical, And In Vivo Characterization Of The First Virally Encoded Cyclophilin From The Mimivirus.
J. Mol. Biol. V. 378 71 2008
PubMed-ID: 18342330 | Reference-DOI: 10.1016/J.JMB.2007.08.051
(for further references see the PDB file header)

Molecule 1 - PROBABLE PEPTIDYL-PROLYL CIS-TRANS ISOMERASE
	Chains	:	A
	EC Number	:	5.2.1.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15-B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	MIMI_L605
	Organism Scientific	:	MIMIVIRUS
	Organism Taxid	:	315393
	Synonym	:	PPIASE, ROTAMASE

		1
Asymmetric Unit	:	A
Biological Unit 1 (3x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CL	2	Ligand/Ion	CHLORIDE ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:30 , GLY A:176 , LEU A:177 , TYR A:206	BINDING SITE FOR RESIDUE CL A 501
2	AC2	SOFTWARE	ASP A:164 , GLN A:167 , ALA A:191	BINDING SITE FOR RESIDUE CL A 502

(no "SS Bond" information available for 2OSE)

(no "Cis Peptide Bond" information available for 2OSE)

(no "SAP(SNP)/Variant" information available for 2OSE)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CSA_PPIASE_2	PS50072	Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile.	PPIL_MIMIV	18-205	1	A:18-205

Biological Unit 1 (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CSA_PPIASE_2	PS50072	Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile.	PPIL_MIMIV	18-205	3	A:18-205

(no "Exon" information available for 2OSE)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:195
 aligned with PPIL_MIMIV | Q5UP71 from UniProtKB/Swiss-Prot  Length:234

    Alignment length:214
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210    
           PPIL_MIMIV     1 MNYSLEDLPNSGKNPRVYMDIVLNNEIIGRLQIKLFRDAFPAGVENFVQLTNGKTYRVNSNGTGKYKYNRHINRTYEGCKFHNVLHNNYIVSGDIYNSNGSSAGTVYCDEPIPPVFGDYFYPHESKGLLSLVPYTDESGNRYYDSTFMITLDDIRPSNVLDELDRDQVVIGQVYGGLDVLDKINSMIKPYAGRKYPTFSIGKCGAYLDSSQAQR 214
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----------------Pro_isomerase-2oseA01 A:18-205                                                                                                                                                              --------- Pfam domains
         Sec.struct. author ...............eeeeeeee..eeeeeeeeee.hhhhhhhhhhhhhhhhh....---------------..........eee...eeee....----...........................eeee..ee.....ee....eeee........hhhhh....eeeeeeeehhhhhhhhhhhh..........eeeeeeee..hhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------CSA_PPIASE_2  PDB: A:18-205 UniProt: 18-205                                                                                                                                                 --------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ose A   1 MNYSLEDLPNSGKNPRVYMDIVLNNEIIGRLQIKLFRDAFPAGVENFVQLTNGKTYR---------------NRTYEGCKFHNVLHNNYIVSGDIY----SSAGTVYCDEPIPPVFGDYFYPHESKGLLSLVPYTDESGNRYYDSTFMITLDDIRPSNVLDELDRDQVVIGQVYGGLDVLDKINSMIKPYAGRKYPTFSIGKCGAYLDSSQAQR 214
                                    10        20        30        40        50      |  -         -  |     80        90     |   -|      110       120       130       140       150       160       170       180       190       200       210    
                                                                                   57              73                     96  101

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 2OSE)

(no "CATH Domain" information available for 2OSE)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Cyclophil-like (65)

Family: Pro_isomerase (53)

Acanthamoeba polyphaga mimivirus (APMV) (1)

Pro_isomerase-2oseA01

A:18-205

Asymmetric Unit(hide GO term definitions)

Chain A (PPIL_MIMIV | Q5UP71)

molecular function
	GO:0003755	peptidyl-prolyl cis-trans isomerase activity	Catalysis of the reaction: peptidyl-proline (omega=180) = peptidyl-proline (omega=0).
biological process
	GO:0006457	protein folding	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
	GO:0000413	protein peptidyl-prolyl isomerization	The modification of a protein by cis-trans isomerization of a proline residue.
cellular component
	GO:0030430	host cell cytoplasm	The cytoplasm of a host cell.
	GO:0019012	virion	The complete fully infectious extracellular virus particle.

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		CL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2ose)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2ose
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	PPIL_MIMIV \| Q5UP71
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	5.2.1.8
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	PPIL_MIMIV \| Q5UP71
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

(no "Entries Sharing at Least One Protein Chain" available for 2OSE)

(no "Related Entries Specified in the PDB File" available for 2OSE)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (1, 1)

Gene Ontology (5, 5)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File